% extracts the data from the excell files, converts the values of the
% labels from pixeis to coordinates (like worm position), normalizes the
% position in relation to a defined position for the PA stimuli so that all
% worms have the stimulus torwards they are heading in the same place

%% extra functions 
%convertx
%converty

%%
% DON'T FORGET TO CHANGE NUMBER OF FILES IN THE END AND SAVE
% ANALYZIS DESIGN FOR PA STIMULI (LEFT SIDE OF IMAGE);
%%
% select the excell file from where to extract the data
load ('C:\Users\Ana\Dropbox\Matlab\data\revlab.mat');

[filename, pathname] = uigetfile({'*.m';'*.slx';'*.mat';'*.*'},'File Selector');


% stores the data from the excell file 
store = cell (1,30,1);

number = xlsread (filename,1);
time = xlsread (filename ,2);
xpos = xlsread (filename,3);
ypos = xlsread (filename,4);
[num, text, raw] = xlsread (filename,6);% to extract both numeric and string data
reversals = raw (:,1);
[num1, text1, raw1] = xlsread (filename,7);
omegas = raw1 (:,1);
label_x = xlsread (filename,10);
label_y = xlsread (filename,11);
time_to_arrive = xlsread (filename,12);
conversion = xlsread (filename,14);

%% transform the value of the labels from pixeis to coordinates and store on
%the cell array
xlab = convertx (label_x,conversion);
ylab = converty (label_y, conversion);

%% find the parameters to align to the PA stimuli
%set the same value for the position of the PA stimuli - I decided these
%values in an arbitrary way to fit well in the graph
PAx = 7500;
PAy = 12500;

%find the distance between where the stimulus is in my video and the specificed PA stimuli
xdistPA = PAx - xlab;
ydistPA = PAy - ylab;

%% correct the values of x and y torwards the new stimulus values
n = size (xpos, 1);
horfinal = [];%for x values horizontally
for i = 1:n;
    hornorm = xpos (i) + xdistPA;
    a = hornorm;
    horfinal = [horfinal; a];
end


verfinal = [];%for y values vertically
for i = 1:n;
   vernorm = ypos (i) + ydistPA;
    b = vernorm;
    verfinal = [verfinal; b];
end



store {1,1,1} = number;
store {1,2,1} = time;
store {1,3,1} = horfinal;
store {1,4,1} = verfinal;
store {1,5,1} = PAx;% now my coordinates are aligned to this postion
store {1,6,1} = PAy;% of stimulus
store {1,7,1} = time_to_arrive;
store {1,8,1} = reversals;
store {1,16,1} = omegas;

% save the data in the designated file
MT_STM14_OP_vs_PA_PA4_Choice_PA_reversals_F1 = store ;

